| # | Week ending | Film | Box office | Notes | Ref |
|---|
| 1 | 1 January 2001 | Dinosaur | ¥133,500,000 | | [2] [3] |
| 2 | 8 January 2001 | ¥219,616,420 | | [2] |
| 3 | 15 January 2001 | Dancer in the Dark | ¥92,925,553 | Dancer in the Dark reached number one in its fourth week of release | [4] |
| 4 | 22 January 2001 | ¥100,309,014 | | [5] |
| 5 | 29 January 2001 | ¥92,873,547 | | [6] |
| 6 | 2 February 2001 | The Crimson Rivers | ¥406,980,000 | National grosses now reported not just top nine cities | [7] |
| 7 | 9 February 2001 | Pay It Forward | ¥418,099,968 | | [8] |
| 8 | 16 February 2001 | Unbreakable | ¥1,014,228,930 | | [9] |
| 9 | 23 February 2001 | ¥574,482,402 | | [10] |
| 10 | 2 March 2001 | Cast Away | ¥924,216,951 | | [11] |
| 11 | 9 March 2001 | ¥599,743,935 | | [12] |
| 12 | 16 March 2001 | TBD | | |
| 13 | 23 March 2001 | | |
| 14 | 30 March 2001 | Doraemon: Nobita and the Winged Braves | | [13] |
| 15 | 6 April 2001 | Hannibal | | [14] |
| 16 | 13 April 2001 | ¥360,631,477 | | [15] |
| 17 | 22 April 2001 | The Mexican | ¥272,190,391 | | [16] |
| 18 | 29 April 2001 | Hannibal | ¥215,755,232 | Weekend figures. Hannibal returned to number one in its fifth week of release | [17] |
| 19 | 6 May 2001 | ¥232,216,545 | Weekend figures | [18] |
| 20 | 13 May 2001 | Detective Conan: Countdown to Heaven | ¥161,905,210 | Detective Conan: Countdown to Heaven reached number one in its fourth week of release | [19] |
| 21 | 20 May 2001 | Hannibal | ¥98,681,056 | Weekend figures. Hannibal returned to number one in its eighth week of release | [20] |
| 22 | 27 May 2001 | Hotaru | ¥173,764,606 | | [21] |
| 23 | 3 June 2001 | ¥155,934,353 | | [22] |
| 24 | 10 June 2001 | The Mummy Returns | ¥838,541,010 | Weekend figures. The Mummy Returns set a record June opening | [23] [24] |
| 25 | 17 June 2001 | ¥391,481,990 | Weekend figures | [25] |
| 26 | 24 June 2001 | ¥330,000,000 | Weekend figures | [26] |
| 27 | 1 July 2001 | A.I. Artificial Intelligence | ¥1,064,900,292 | Weekend figures. A.I. set a record June opening beating the record set by The Mummy Returns | [27] [24] |
| 28 | 6 July 2001 | ¥814,553,949 | Weekend figures | [28] |
| 29 | 15 July 2001 | Pearl Harbor | ¥887,400,048 | Weekend figures | [29] |
| 30 | 22 July 2001 | Spirited Away † | ¥1,100,671,343 | Weekend figures. Spirited Away set an opening weekend record beating the record set by Princess Mononoke | [30] [31] |
| 31 | 29 July 2001 | ¥1,080,000,000 | Weekend only | [32] |
| 32 | 5 August 2001 | ¥980,264,618 | Weekend only | [32] |
| 33 | 12 August 2001 | ¥1,027,797,052 | Weekend only | [33] |
| 34 | 19 August 2001 | ¥958,118,051 | Weekend only | [34] |
| 35 | 26 August 2001 | ¥960,000,000 | Weekend only | [35] |
| 36 | 2 September 2001 | ¥730,826,005 | Weekend only | [35] |
| 37 | 9 September 2001 | ¥753,024,000 | Weekend only | [36] |
| 38 | 16 September 2001 | ¥702,600,000 | Weekend only | [37] |
| 39 | 23 September 2001 | ¥548,590,968 | | [38] |
| 40 | 30 September 2001 | ¥467,449,017 | | [39] |
| 41 | 7 October 2001 | Lara Croft: Tomb Raider | ¥757,527,701 | Weekend only | [40] |
| 42 | 14 October 2001 | Spirited Away † | ¥291,000,000 | Spirited Away returned to number one in its thirteenth week of release | [41] |
| 43 | 21 October 2001 | ¥299,739,990 | | [41] |
| 44 | 28 October 2001 | ¥370,860,000 | | [42] |
| 45 | 4 November 2001 | ¥341,194,350 | | [42] |
| 46 | 11 November 2001 | Calmi Cuori Appassionati | ¥278,960,031 | Weekend only | [43] |
| 47 | 18 November 2001 | ¥239,423,499 | Weekend only | [44] |
| 48 | 25 November 2001 | Spirited Away † | ¥275,049,000 | Spirited Away returned to number one in its nineteenth week of release | [45] |
| 49 | 2 December 2001 | Harry Potter and the Sorcerer's Stone | ¥1,573,341,524 | Weekend only. Harry Potter and the Sorcerer's Stone beat the opening record set by Spirited Away | [46] |
| 50 | 9 December 2001 | ¥1,516,029,612 | Weekend only | [47] |
| 51 | 16 December 2001 | ¥1,012,597,764 | | [48] |
| 52 | 23 December 2001 | TBD | | |
| 53 | 30 December 2001 | ¥770,000,000 | Weekend only | [49] |
|